68,867 research outputs found
ExplaiNE: An Approach for Explaining Network Embedding-based Link Predictions
Networks are powerful data structures, but are challenging to work with for
conventional machine learning methods. Network Embedding (NE) methods attempt
to resolve this by learning vector representations for the nodes, for
subsequent use in downstream machine learning tasks.
Link Prediction (LP) is one such downstream machine learning task that is an
important use case and popular benchmark for NE methods. Unfortunately, while
NE methods perform exceedingly well at this task, they are lacking in
transparency as compared to simpler LP approaches.
We introduce ExplaiNE, an approach to offer counterfactual explanations for
NE-based LP methods, by identifying existing links in the network that explain
the predicted links. ExplaiNE is applicable to a broad class of NE algorithms.
An extensive empirical evaluation for the NE method `Conditional Network
Embedding' in particular demonstrates its accuracy and scalability
Tractable approximate deduction for OWL
Acknowledgements This work has been partially supported by the European project Marrying Ontologies and Software Technologies (EU ICT2008-216691), the European project Knowledge Driven Data Exploitation (EU FP7/IAPP2011-286348), the UK EPSRC project WhatIf (EP/J014354/1). The authors thank Prof. Ian Horrocks and Dr. Giorgos Stoilos for their helpful discussion on role subsumptions. The authors thank Rafael S. Gonçalves et al. for providing their hotspots ontologies. The authors also thank BoC-group for providing their ADOxx Metamodelling ontologies.Peer reviewedPostprin
Hybrid Approach of Relation Network and Localized Graph Convolutional Filtering for Breast Cancer Subtype Classification
Network biology has been successfully used to help reveal complex mechanisms
of disease, especially cancer. On the other hand, network biology requires
in-depth knowledge to construct disease-specific networks, but our current
knowledge is very limited even with the recent advances in human cancer
biology. Deep learning has shown a great potential to address the difficult
situation like this. However, deep learning technologies conventionally use
grid-like structured data, thus application of deep learning technologies to
the classification of human disease subtypes is yet to be explored. Recently,
graph based deep learning techniques have emerged, which becomes an opportunity
to leverage analyses in network biology. In this paper, we proposed a hybrid
model, which integrates two key components 1) graph convolution neural network
(graph CNN) and 2) relation network (RN). We utilize graph CNN as a component
to learn expression patterns of cooperative gene community, and RN as a
component to learn associations between learned patterns. The proposed model is
applied to the PAM50 breast cancer subtype classification task, the standard
breast cancer subtype classification of clinical utility. In experiments of
both subtype classification and patient survival analysis, our proposed method
achieved significantly better performances than existing methods. We believe
that this work is an important starting point to realize the upcoming
personalized medicine.Comment: 8 pages, To be published in proceeding of IJCAI 201
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